DreINT0071478 @ danRer10
Intron Retention
Gene
ENSDARG00000060631 | garnl3
Description
GTPase activating Rap/RanGAP domain-like 3 (garnl3), mRNA [Source:RefSeq mRNA;Acc:NM_001128527]
Coordinates
chr5:32794346-32794560:-
Coord C1 exon
chr5:32794534-32794560
Coord A exon
chr5:32794422-32794533
Coord C2 exon
chr5:32794346-32794421
Length
112 bp
Sequences
Splice sites
5' ss Seq
GAGGTATAT
5' ss Score
7.3
3' ss Seq
TATTTGCTTGTTCTTTACAGGGA
3' ss Score
8.86
Exon sequences
Seq C1 exon
GACTTACTGGTGCTGGAGGAGCAAGAG
Seq A exon
GTATATACTCTCAAATGTGTGAGAAGAAATGACCATCTCTGTGATTTGAATTTTTTTTTTTTTGTAAATTCTCATTGAACGCTGATTATATGTATTTGCTTGTTCTTTACAG
Seq C2 exon
GGAAGCGTTAACTTTAAATTTGGTGTTCTTTATGCCAAGGACGGACAGTTGACAGATGATGAAATGTTCAGCAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060631:ENSDART00000085636:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.077
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0214510=Rap_GAP=PU(2.1=15.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACTTACTGGTGCTGGAGGAG
R:
TGCTGAACATTTCATCATCTGTCA
Band lengths:
100-212
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]